Evidence map›Paper›PMID 40234734›Full record

ArticleGenomics, proteomics & bioinformatics2025

GCRP: Integrated Global Chicken Reference Panel from 11,951 Chicken Genomes.

Di Zhu, Yuzhan Wang, Hao Qu, Chungang Feng, Hui Zhang, Zheya Sheng, Yunliang Jiang, Qinghua Nie, Suqiao Chu, Dingming Shu and 8 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genomics, proteomics & bioinformatics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

4 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Article
  3. Article
  4. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

18 authors.

Di ZhuState Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing 100193, China.ORCID 0000-0002-9362-3834
Yuzhan WangState Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing 100193, China.ORCID 0000-0003-4463-4075
Hao QuState Key Laboratory of Swine and Poultry Breeding Industry, Guangdong Key Laboratory of Animal Breeding and Nutrition, Institute of Animal Science, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China.ORCID 0009-0004-3013-6766
Chungang FengCollege of Animal Science and Technology, Nanjing Agricultural University, Nanjing 210095, China.ORCID 0000-0002-7031-4211
Hui ZhangCollege of Animal Science and Technology, Northeast Agricultural University, Harbin 150030, China.ORCID 0000-0002-6331-6876
Zheya ShengKey Laboratory of Agricultural Animal Genetics, Breeding and Reproduction of Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China.ORCID 0000-0002-4487-2682
Yunliang JiangShandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, Shandong Agricultural University, Taian 271018, China.ORCID 0000-0002-2914-6818
Qinghua NieDepartment of Animal Genetics, Breeding and Reproduction, College of Animal Science, South China Agricultural University, Guangzhou 510642, China.ORCID 0000-0003-3934-3820
Suqiao ChuShijiazhuang Animal Husbandry Technology Promotion Station, Shijiazhuang 050000, China.ORCID 0009-0005-3176-0568
Dingming ShuState Key Laboratory of Swine and Poultry Breeding Industry, Guangdong Key Laboratory of Animal Breeding and Nutrition, Institute of Animal Science, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China.ORCID 0000-0002-0109-3013
Ziqin JiangWen's Nanfang Poultry Breeding Co., Ltd., Yunfu 527400, China.ORCID 0009-0005-9538-7539
Dexiang ZhangWen's Nanfang Poultry Breeding Co., Ltd., Yunfu 527400, China.ORCID 0009-0006-1574-0994
Lingzhao FangCenter for Quantitative Genetics and Genomics, Aarhus University, 8000 Aarhus, Denmark.ORCID 0000-0003-1103-3679
Hui LiCollege of Animal Science and Technology, Northeast Agricultural University, Harbin 150030, China.ORCID 0000-0001-6282-5559
Zhenqiang XuWen's Nanfang Poultry Breeding Co., Ltd., Yunfu 527400, China.ORCID 0009-0007-8633-0041
Yiqiang ZhaoState Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing 100193, China.ORCID 0000-0002-0076-3476
Yuzhe WangState Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing 100193, China.ORCID 0000-0003-3474-7957
Xiaoxiang HuState Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing 100193, China.ORCID 0000-0001-7045-0283

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Chickens are a crucial source of protein for humans and a popular model animal for bird research. Despite the emergence of imputation as a reliable genotyping strategy for large populations, the lack of a high-quality chicken reference panel has hindered progress in chicken genome research. To address this, here we introduce the first phase of the 100K Global Chicken Reference Panel (100K GCRP). Currently, two panels are available: a comprehensive mix panel (CMP) for domestication diversity research and a commercial breed panel (CBP) for breeding broilers specifically. Evaluation of genotype imputation quality showed that CMP had the highest imputation accuracy compared to imputation using existing chicken panels in Animal-SNPAtlas and Animal Genotype Imputation Database (AGIDB), whereas CBP performed stably in the imputation of commercial populations. Additionally, we found that genome-wide association studies using GCRP-imputed data, whether on simulated or real phenotypes, exhibited greater statistical power. In conclusion, our study indicates that the GCRP effectively fills the gap in high-quality reference panels for chickens, providing an effective imputation platform for future genetic and breeding research. The project includes 11,951 samples and provides services for various applications on its website at http://farmrefpanel.com/GCRP/#/.

Indexed as

ChickensGenomeAnimalsBreedingDatabases, GeneticGenome-Wide Association StudyGenotypePhenotypePolymorphism, Single NucleotideChickenGenome-wide association studyGenotype imputationReference panelWebsite service

Identifiers

PMID40234734
PMCPMC12458076

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.